*Target (protein/gene name): Serine/Threonine- Protein Kinase B PkNB *RefSeq#: NC 015848.1 , WP 003400356.1 *Protein ID (NP or XP #) or Wolbachia#: G0TLP7-1 *Organism (including strain): Mycobacterium canettii (strain CIPT 140010059) (complex of Mycobacterium tuberculosis) Etiologic Risk Group (see link below): RG2
*/Disease Information (sort of like the Intro to your Mini Research Write up): Mycobacterium tuberculosis is an obligate pathogenic bacterial species that causes tuberculosis. Humans are the only known reservoirs of M. tuberculosis and can be spread through air droplets originating from a person who has the disease either coughing, sneezing, speaking, or singing. Tuberculosis is one of the oldest human diseases and remains a major cause of death in some countries. Tuberculosis can affect bone, central nervous system, and other vital organ systems but is a pulmonary disease caused by Mycobacterium tuberculosis transmitted through the air. New strains of Mycobacterium tuberculosis appear often that are more virulent and require new vaccines and drugs. Mycobacterium Canetti is very similar to Mycobacterium tuberculosis and belongs to both belong to the Mycobacterium tuberculosis complex(MTBC) which is a group of genetically similar Mycobacterium species that can cause tuberculosis in living things.
*EC#: Link to BRENDA EC# page: -- Show screenshot of BRENDA enzyme mechanism schematic Enzyme Assay information (spectrophotometric, coupled assay ?, reagents): -- link to Sigma (or other company) page for assay (see Sigma links below) -- -or link (or citation) to paper that contains assay information -- links to assay reagents (substrates) pages. --- List cost and quantity of substrate reagents, supplier, and catalog #
Structure (PDB or Homology model) -- PDB # or closest PDB entry if using homology model: -- For Homology Model option: ---- Show pairwise alignment of your BLASTP search in NCBI against the PDB ---- Query Coverage: ---- Max % Identities: ---- % Positives ---- Chain used for homology:
Current Inhibitors: Expression Information (has it been expressed in bacterial cells): Purification Method: Image of protein (PyMol with features delineated and shown separately): *Amino Acid Sequence (paste as text only - not as screenshot or as 'code'): *length of your protein in Amino Acids Molecular Weight of your protein in kiloDaltons using the Expasy ProtParam website Molar Extinction coefficient of your protein at 280 nm wavelength: TMpred graph Image (http://www.ch.embnet.org/software/TMPRED_form.html). Input your amino acid sequence to it. *CDS Gene Sequence (paste as text only): *GC% Content for gene: *CDS Gene Sequence (codon optimized) - copy from output of Primer Design Protocol (paste as text only): *GC% Content for gene (codon optimized):
Do Not Need this info for Spring (but still copy these lines to your Target page for now) Primer design results for pNIC-Bsa4 cloning (list seqeunces of all of your ~40 nt long primers): (link to DNA Works output text file - that should be saved in your Google Docs folder after you did the primer design protocol) -- Ask a mentor, Dr. B, or a fellow researcher -how to link a GDocs file if you are not sure how to.
Primer design results for 'tail' primers (this is just 2 sequences): **
*Target (protein/gene name): Serine/Threonine- Protein Kinase B PkNB*RefSeq#: NC 015848.1 , WP 003400356.1
*Protein ID (NP or XP #) or Wolbachia#: G0TLP7-1
*Organism (including strain): Mycobacterium canettii (strain CIPT 140010059) (complex of Mycobacterium tuberculosis)
Etiologic Risk Group (see link below): RG2
*/Disease Information (sort of like the Intro to your Mini Research Write up):
Mycobacterium tuberculosis is an obligate pathogenic bacterial species that causes tuberculosis. Humans are the only known reservoirs of M. tuberculosis and can be spread through air droplets originating from a person who has the disease either coughing, sneezing, speaking, or singing. Tuberculosis is one of the oldest human diseases and remains a major cause of death in some countries. Tuberculosis can affect bone, central nervous system, and other vital organ systems but is a pulmonary disease caused by Mycobacterium tuberculosis transmitted through the air. New strains of Mycobacterium tuberculosis appear often that are more virulent and require new vaccines and drugs. Mycobacterium Canetti is very similar to Mycobacterium tuberculosis and belongs to both belong to the Mycobacterium tuberculosis complex(MTBC) which is a group of genetically similar Mycobacterium species that can cause tuberculosis in living things.
Link to TDR Targets page (if present): http://www.tdrtargets.org/targets/view?gene_id=6795
Link to Gene Database page (NCBI, EuPath databases -e.g. TryTryp, PlasmoDB, etc - or PATRIC, etc.): UniProt: http://www.uniprot.org/uniprot/G0TLP7
Essentiality of this protein:
Is it a monomer or multimer as biological unit? (make prediction at http://www.ebi.ac.uk/msd-srv/prot_int/pistart.html):
Complex of proteins?:
Druggable Target (list number or cite evidence from a paper/database showing druggable in another organism):
*EC#:
Link to BRENDA EC# page:
-- Show screenshot of BRENDA enzyme mechanism schematic
Enzyme Assay information (spectrophotometric, coupled assay ?, reagents):
-- link to Sigma (or other company) page for assay (see Sigma links below)
-- -or link (or citation) to paper that contains assay information
-- links to assay reagents (substrates) pages.
--- List cost and quantity of substrate reagents, supplier, and catalog #
Structure (PDB or Homology model)
-- PDB # or closest PDB entry if using homology model:
-- For Homology Model option:
---- Show pairwise alignment of your BLASTP search in NCBI against the PDB
---- Query Coverage:
---- Max % Identities:
---- % Positives
---- Chain used for homology:
Current Inhibitors:
Expression Information (has it been expressed in bacterial cells):
Purification Method:
Image of protein (PyMol with features delineated and shown separately):
*Amino Acid Sequence (paste as text only - not as screenshot or as 'code'):
*length of your protein in Amino Acids
Molecular Weight of your protein in kiloDaltons using the Expasy ProtParam website
Molar Extinction coefficient of your protein at 280 nm wavelength:
TMpred graph Image (http://www.ch.embnet.org/software/TMPRED_form.html). Input your amino acid sequence to it.
*CDS Gene Sequence (paste as text only):
*GC% Content for gene:
*CDS Gene Sequence (codon optimized) - copy from output of Primer Design Protocol (paste as text only):
*GC% Content for gene (codon optimized):
Do Not Need this info for Spring (but still copy these lines to your Target page for now)
Primer design results for pNIC-Bsa4 cloning (list seqeunces of all of your ~40 nt long primers):
(link to DNA Works output text file - that should be saved in your Google Docs folder after you did the primer design protocol)
-- Ask a mentor, Dr. B, or a fellow researcher -how to link a GDocs file if you are not sure how to.
Primer design results for 'tail' primers (this is just 2 sequences):
**